Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TEAD1

Cell type

Cell type Class
Digestive tract
Cell type
YCC-11
NA
NA

Attributes by original data submitter

Sample

source_name
Gastric Cancer Line
cell line
YCC11
chip antibody
TEAD1
treatment
Untreated
geo_loc_name
missing
collection_date
missing

Sequenced DNA Library

library_name
GSM5655151
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, sheared chromatin were subjected to immunoprecipitation with 2 μg antibody against H3K27ac (ab4729, Abcam), H3K4me1 (ab8895, Abcam) or 5 μg antibody against TEAD1 (610923, BD Biosciences). For RNA-seq, total RNA was extracted following manufacturer's protocols (Qiagen) For Nano histone ChIP-seq, ChIP and input DNA were subjected to whole-genome amplification using the WGA4 kit (Sigma-Aldrich) and a universal primer linked to BpmI restriction site (Qiagen). 30ng of BpmI-digested DNA was used for ChIP-seq library preparation according to manufacturer's protocols (New England Biolabs). For TF ChIP-seq, 30ng of ChIP and input DNA was used for library preparation. For RNA-seq, libraries were prepared accordingly using Tru-Seq Stranded Total RNA with Ribo-Zero Gold kit (Illumina), with an input of 1 μg total RNA.

Sequencing Platform

instrument_model
Illumina HiSeq 3000

hg38

Number of total reads
51974063
Reads aligned (%)
0.0
Duplicates removed (%)
0.0
Number of peaks
6923 (qval < 1E-05)

hg19

Number of total reads
51974063
Reads aligned (%)
0.0
Duplicates removed (%)
0.0
Number of peaks
6971 (qval < 1E-05)

Base call quality data from DBCLS SRA